Antigen

Antigen Class

TFs and others

Antigen

Tead4

Cell type

Cell type Class

Liver

Cell type

Liver

MeSH Description

A large lobed glandular organ in the abdomen of vertebrates that is responsible for detoxification, metabolism, synthesis and storage of various substances.

Sample

source_name

Liver_ChIPSeq_Tead_LSL_7d

strain background

C57BL/6

genotype

ROSA26-rtTA-IRES-EGFP; tetYAP

tissue

liver

treatment

doxycycline food for 7 days

chip antibody

TEAD (Aviva Systems Biology, ARP38276)

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

For ChIP experiments, whole cell extracts were sonicated to solubilize the chromatin. The chromatin extracts containing DNA fragments with an average size of 250 bp were immunoprecipitated using different antibodies. For TEAD, dissected liver/tumors were fixed with 1% formaldehyde. For YAP ChIP, fixation was performed by a double step approach with 0.5 M DSG (Di-(N-succinimidyl)-glutarate) and 1% formaldehyde (FA). For ChIP seq, libraries were prepared for Illumina sequencing using a standard protocol consisting in blunting, addition of dA overhangs, ligation of Illumina adapters, selection on gel and PCR with index primers.

Sequencing Platform

instrument_model

Illumina HiSeq 2000

mm10

Number of total reads

15780381

Reads aligned (%)

45.4

Duplicates removed (%)

19.4

Number of peaks

6414 (qval < 1E-05)

mm9

Number of total reads

15780381

Reads aligned (%)

45.3

Duplicates removed (%)

19.6

Number of peaks

6413 (qval < 1E-05)